Specifications
==============

Sequence source file: "/data/brick1/zmahmoud/africandsi-megassr/megassr-v3/results/hub_GCA_033557145.1/fasta/hub_GCA_033557145.1_genomic.fa"

Definement of microsatellites (unit size / minimum number of repeats):
(1/20) (2/6) (3/5) (4/4) (5/3) (6/3) 

Maximal number of bases interrupting 2 SSRs in a compound microsatellite:  100



RESULTS OF MICROSATELLITE SEARCH
================================

Total number of sequences examined:              15094
Total size of examined sequences (bp):           6104063
Total number of identified SSRs:                 362
Number of SSR containing sequences:              322
Number of sequences containing more than 1 SSR:  33
Number of SSRs present in compound formation:    20


Distribution to different repeat type classes
---------------------------------------------

Unit size	Number of SSRs
1	1
2	94
3	64
4	26
5	102
6	75

Frequency of identified SSR motifs
----------------------------------

Repeats	3	4	5	6	7	8	9	10	11	12	13	14	15	16	17	18	19	20	21	total
C	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-		1	1
AC	-	-	-	6	2															8
AG	-	-	-	10	3	1	3													17
AT	-	-	-	2	1															3
CA	-	-	-	4	3	1														8
CG	-	-	-	1																1
CT	-	-	-	8	2			1			1									12
GA	-	-	-	7	4	2		2												15
GC	-	-	-	3																3
GT	-	-	-	2	2		1													5
TA	-	-	-	2	1		1					1								5
TC	-	-	-	4	5	2	1		2											14
TG	-	-	-	2					1											3
AAC	-	-		1																1
AAT	-	-	2																	2
ACA	-	-		1																1
AGC	-	-	1																	1
ATA	-	-	4	1																5
ATG	-	-		1																1
ATT	-	-	2	3																5
CAA	-	-	1																	1
CAC	-	-	1																	1
CCG	-	-	1																	1
CCT	-	-	1																	1
CGA	-	-	1	2																3
CTT	-	-	1	1																2
GAA	-	-	1																	1
GAG	-	-	1																	1
GAT	-	-	1	1																2
GCA	-	-	1																	1
GCC	-	-		1																1
GCG	-	-	1																	1
GCT	-	-			1															1
GGA	-	-	2																	2
TAA	-	-	7																	7
TAC	-	-	1																	1
TAG	-	-						1												1
TAT	-	-	2		1															3
TCA	-	-	3																	3
TCC	-	-	1	2																3
TCG	-	-	2																	2
TGA	-	-	1																	1
TGG	-	-	1																	1
TTA	-	-	3	1																4
TTC	-	-	1	1																2
TTG	-	-		1																1
AAAG	-	1																		1
AATA	-	1																		1
AATT	-	1																		1
ACAG	-	1																		1
ACAT	-		1																	1
ATCC	-		1																	1
ATGG	-	2																		2
ATTC	-		1																	1
CAAT	-	1																		1
CCAG	-				1															1
CCTT	-		1																	1
CTCA	-	1																		1
CTCG	-	1																		1
GAAG	-	1																		1
GATT	-	1																		1
GGAA	-	1																		1
GGCT	-		1																	1
GGTA	-	1																		1
TACA	-	1																		1
TATC	-	1	1																	2
TCTT	-	1																		1
TGAA	-	1																		1
TGAT	-		1																	1
TTTC	-	1																		1
AAAAC	1																			1
AAAAT	3																			3
AAACT	1																			1
AAATA	1																			1
AAATC	1																			1
AAATT	1																			1
AACAA	1																			1
AAGAA	1																			1
AATTG	2																			2
AATTT	5																			5
ACAAA	1																			1
ACACT	1																			1
ACATG		1																		1
ACGCC	1																			1
ACTCA	1																			1
AGAAG	1																			1
AGGAA		1																		1
AGTTT	1																			1
ATAAA	2																			2
ATCTA	1	1																		2
ATGAA	2																			2
ATTAG	2																			2
ATTTA	2																			2
CAACC	2																			2
CACCT	1																			1
CAGTC	1																			1
CATGA	1																			1
CCAAC	3																			3
CCACA	1																			1
CCCAA	1																			1
CCGCG	1																			1
CCTCT	1																			1
CGAGG	1																			1
CGCGT	1																			1
CGGCA	1																			1
CTCAT	1																			1
CTCCT	2																			2
CTCTC			1																	1
GAGAC	1																			1
GAGAG	1																			1
GAGAT	1																			1
GAGGA	1																			1
GCAAC	2																			2
GCACA	1																			1
GCGAC	1																			1
GGATG	1																			1
GGGTC	1																			1
GTCGG	1																			1
GTTGG	1	1																		2
TAAAA	3																			3
TAACA	1																			1
TAATT		1																		1
TACCT			1																	1
TAGAA	3																			3
TAGAG	1																			1
TAGGT	1																			1
TCGCG	1																			1
TCTCT	1																			1
TCTTC	1																			1
TCTTT	1																			1
TGAAT	1																			1
TGAGG	1																			1
TGCTC	1																			1
TGGAG	1																			1
TGGGT	1																			1
TTAAA	1																			1
TTACG	1																			1
TTAGA		2																		2
TTGAA	1			1																2
TTGTG	1																			1
TTTAA	1																			1
TTTAC	1																			1
TTTGA	1																			1
TTTGG	1																			1
TTTTA	4																			4
AAAGGT	1																			1
AAATCC		1																		1
AAATTA	1																			1
AAGCCT	1																			1
AAGGTC	1																			1
AATAAA	1																			1
ACCTCC	1																			1
AGCCTA	2																			2
AGTTGG	1																			1
ATACCC	1																			1
ATCGTC	1																			1
ATGGTT	1																			1
ATTGCC	2																			2
CAAACG	1																			1
CAACGA	1																			1
CAACGT	1																			1
CACAGT			1																	1
CACGAG			1																	1
CATCTG		1																		1
CATGAT	1																			1
CCACCG	1																			1
CCATCC		1																		1
CCTCCG	1																			1
CCTCGA	1																			1
CGAAGC	1																			1
CGACGT	1																			1
CGAGGC	2																			2
CGCAGG	1																			1
CGCATC	1																			1
CGCCTT	1																			1
CGGCCG	1																			1
CGGGTC	1																			1
CGTCCT	1																			1
CGTTGC	1																			1
CTCGTG	1																			1
CTTCCC	1																			1
CTTCTA	1																			1
GAAGGG	1																			1
GAATGG	1																			1
GAGCCC	1																			1
GAGGCT	1																			1
GATCTT	1																			1
GATGAG	1																			1
GCAGGT	1																			1
GCCAAT	1																			1
GCTTGC	1																			1
GGACTC	1																			1
GGAGAA		1																		1
GGAGAG	1																			1
GGAGGC	1																			1
GGCGCA	1																			1
GTCGGC	1																			1
GTTGCC	3																			3
TAAATT	1																			1
TAACAA	1																			1
TATGGT	1																			1
TCACGC	1																			1
TCAGCC	1																			1
TCGATA	1																			1
TCGCAC	1																			1
TCTCCG	1																			1
TCTGCT	1																			1
TGCGAA		1																		1
TGGGAA	1																			1
TGGTCG	1																			1
TGGTGT	1																			1
TGGTTC	1																			1
TGTATT	1																			1
TTGGAC	1																			1
TTTTGC	1																			1

Frequency of classified repeat types (considering sequence complementary)
-------------------------------------------------------------------------

Repeats	3	4	5	6	7	8	9	10	11	12	13	14	15	16	17	18	19	20	21	total
C/G	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-		1	1
AC/GT	-	-	-	14	7	1	1		1											24
AG/CT	-	-	-	29	14	5	4	3	2		1									58
AT/AT	-	-	-	4	2		1					1								8
CG/CG	-	-	-	4																4
AAC/GTT	-	-	1	3																4
AAG/CTT	-	-	3	2																5
AAT/ATT	-	-	20	5	1															26
ACC/GGT	-	-	2																	2
ACG/CGT	-	-	3	2																5
ACT/AGT	-	-	1					1												2
AGC/CTG	-	-	2		1															3
AGG/CCT	-	-	5	2																7
ATC/ATG	-	-	5	2																7
CCG/CGG	-	-	2	1																3
AAAG/CTTT	-	3																		3
AAAT/ATTT	-	1																		1
AAGG/CCTT	-	2	1																	3
AATC/ATTG	-	2	1																	3
AATG/ATTC	-	1	1																	2
AATT/AATT	-	1																		1
ACAG/CTGT	-	1																		1
ACAT/ATGT	-	1	1																	2
ACCT/AGGT	-	1																		1
ACTC/AGTG	-	1																		1
AGAT/ATCT	-	1	1																	2
AGCC/CTGG	-		1		1															2
AGCG/CGCT	-	1																		1
ATCC/ATGG	-	2	1																	3
AAAAC/GTTTT	3																			3
AAAAG/CTTTT	2																			2
AAAAT/ATTTT	13																			13
AAACC/GGTTT	1																			1
AAACT/AGTTT	2																			2
AAAGG/CCTTT		1																		1
AAAGT/ACTTT	1																			1
AAATC/ATTTG	2																			2
AAATG/ATTTC	2																			2
AAATT/AATTT	10	1																		11
AACAC/GTGTT	1																			1
AACAT/ATGTT	1																			1
AACCC/GGGTT	8	1																		9
AACCT/AGGTT	1																			1
AACGC/CGTTG	2																			2
AACGT/ACGTT	1																			1
AACTC/AGTTG	1																			1
AAGAG/CTCTT	3																			3
AAGGT/ACCTT			1																	1
AATAG/ATTCT	3																			3
AATCT/AGATT	3	3																		6
AATTC/AATTG	4			1																5
ACACC/GGTGT	1																			1
ACACT/AGTGT	1																			1
ACAGC/CTGTG	1																			1
ACATG/ATGTC	1	1																		2
ACCCG/CGGGT	2																			2
ACCTC/AGGTG	2																			2
ACGAG/CGTCT	1																			1
ACGCC/CGTGG	1																			1
ACGCG/CGCGT	3																			3
ACGGC/CCGTG	1																			1
ACTCC/AGTGG	1																			1
ACTCT/AGAGT	1																			1
ACTGG/AGTCC	1																			1
AGAGC/CTCTG	1																			1
AGAGG/CCTCT	5		1																	6
AGATG/ATCTC	2																			2
AGGCG/CCTCG	1																			1
ATCCC/ATGGG	1																			1
CCGCG/CGCGG	1																			1
AAAAAT/ATTTTT	1																			1
AAAAGC/CTTTTG	1																			1
AAAATT/AATTTT	1																			1
AAACGC/CGTTTG	1																			1
AAAGGT/ACCTTT	1																			1
AAATAC/ATTTGT	1																			1
AAATCC/ATTTGG		1																		1
AAATTT/AAATTT	1																			1
AACAAT/ATTGTT	1																			1
AACACC/GGTGTT	1																			1
AACCAG/CTGGTT	1																			1
AACCAT/ATGGTT	2																			2
AACGAC/CGTTGT	1																			1
AACGGC/CCGTTG	4																			4
AACGTC/ACGTTG	1																			1
AACTCC/AGTTGG	1																			1
AAGATC/ATCTTG	1																			1
AAGCAG/CTGCTT	1																			1
AAGCCG/CGGCTT	1																			1
AAGCCT/AGGCTT	3																			3
AAGCGC/CGCTTG	1																			1
AAGGAG/CCTTCT		1																		1
AAGGCG/CCTTCG	1																			1
AAGGGG/CCCCTT	2																			2
AAGGTC/ACCTTG	1																			1
AAGTAG/ACTTCT	1																			1
AAGTCC/ACTTGG	1																			1
AATGCC/ATTGGC	1																			1
AATGCG/ATTCGC		1																		1
AATGGC/ATTGCC	2																			2
AATGGG/ATTCCC	2																			2
ACAGTC/ACTGTG			1																	1
ACCACG/CGTGGT	1																			1
ACCCAT/ATGGGT	1																			1
ACCCGG/CCGGGT	1																			1
ACCGCC/CGGTGG	1																			1
ACCTCC/AGGTGG	1																			1
ACCTCG/AGGTCG	1																			1
ACCTGC/AGGTGC	1																			1
ACGAGC/CGTGCT	1		1																	2
ACGAGG/CCTCGT	1																			1
ACGATG/ATCGTC	1																			1
ACGCCG/CGGCGT	1																			1
ACGCTC/AGCGTG	1																			1
ACGGAG/CCGTCT	1																			1
ACGTCG/ACGTCG	1																			1
ACTCGC/AGTGCG	1																			1
ACTCGG/AGTCCG	1																			1
AGAGGG/CCCTCT	1																			1
AGATGC/ATCTGC		1																		1
AGCCCG/CGGGCT	1																			1
AGCCTC/AGGCTG	2																			2
AGGATG/ATCCTC	1																			1
AGGCCG/CCTCGG	2																			2
AGGCGC/CCTGCG	2																			2
AGGCGG/CCGCCT	2																			2
ATATCG/ATATCG	1																			1
ATCATG/ATCATG	1																			1
ATCCCC/ATGGGG		1																		1
ATCCGC/ATGCGG	1																			1
CCGCGG/CCGCGG	1																			1
